PhD Theses

Last updated January 2024

Marek Prachar
Predicting peptide-MHC stability and immunogenicity with deep learning
Supervisor: Frederik O. Bagger, Sune Justesen & Ole Winther
Date: 02-01-2024

Zilong Li
Efficient statistical and computational methods for large scale sequencing data
Supervisor: Anders Albrechtsen
Date: 03-11-2023

Malthe Sebro Rasmussen
Probabilistic modelling in genomics
Supervisor: Anders Albrechtsen & Carsten Wiuf
Date: 15-09-2023

Casia Nursyifa
Application of whole genome sequencing data in population genetics: Identifying sex-linked scaffolds and inferring admixture in a unique cattle population
Supervisor: Rasmus Heller
Date: 01-08-2023

Jiayi Yao
Investigation of acid adaptation in the tumor microenvironment at gene, promoter and enhancer levels
Supervisor: Albin Sandelin
Date: 30-04-2023

Carlotta Porcelli
Functions of m6A-YTH modules in plants Lessons from high-throughput sequencing analyses
Supervisor: Peter Brodersen & Robin Andersson
Date: 18-04-2023

Signe Schmidt Kjølner Hansen
Between inflammation, homeostasis and adaptation: Systemic and tissue-specific responses to maternal immune activation
Supervisor: Albin Sandelin & Karin Sørig Hougaard
Date: 13-02-2023

Ida Marie Zobbe Sjøgaard
Functional Analysis of Structural Elements of ARGONAUTE1 in Arabidopsis thaliana Supervisor: Peter Brodersen
Date: 02-01-2023

Lucas van Duin
Deciphering regulatory mechanisms underlying gene co-activity
Supervisor: Robin Andersson
Date: 13-10-2022

Wenqian Zhang
Unraveling the genetic basis of neurological diseases and thalassemia: The clinical utility of high throughput sequencing
Supervisor: Anders Albrechtsen
Date: 16-06-2022

Fanwei Zeng
Clinical application of high-throughput sequencing technology in prenatal screening and diagnosis of birth defects
Supervisor: Anders Albrechtsen
Date: 30-05-2022

Stylianos Bakoulis
On the origin of regulatory elements: Computational analyses of transposable elements in pluripotency and development
Supervisor: Robin Andersson
Date: 22-04-2022

Anne Krogh Nøhr
Exploring antidepressant treatment response using biological and clinical measurements
Supervisor: Anders Albrechtsen, Ida Moltke & Morana Vitezic
Date: 01-04-2022

Maria Louisa Vigh
Mechanisms Underlying siRNA Amplification in Arabidopsis thaliana
Supervisor: Peter Brodersen
Date: 20-02-2022

Hjörleifur Einarsson
Regulation and impact of transcriptional variation
Supervisor: Robin Andersson
Date: 29-12-2021

Fangyue Guo
Requirement of a deeply conserved ARGONAUTE phosphor-cluster for target-mediated microRNA degradation in plants
Supervisor: Peter Brodersen
Date: 30-09-2021

Marianne Stage Strickertsson
Characterization of industrially-produced Lacticaseibacillus rhamnosus GG and Lactobacillus acidophilus LA-5: Analysis of genomic integrity, transcriptome and phenotypes
Supervisor: Albin Sandelin
Date: 16-08-2021

Mengjun Wu
Investigation of the Impact of the RNA Exosome on Cellular Transcriptome and Function
Supervisor: Albin Sandelin
Date: 07-03-2021

Jonas Meisner
Method Development for Next-Generation Sequencing Data in Population Genetics
Supervisor: Anders Albrechtsen
Date: 15-12-2020

Ninna Karsbæk Senftleber
The traditional diet and genetic architecture of the Greenlandic Inuit and their cardiovascular effects
Supervisor: Anders Albrechtsen
Date: 15-02-2020

Axel Thieffry
Investigation of transcriptional output and regulation in plants using Cap Analysis of Gene Expression (CAGE)
Supervisor: Albin Sandelin & Peter Brodersen
Date: 15-01-2020

Lijuan Han
Investigating the possible function of DCL2 as a viral RNA sensor in Arabidopsis
Supervisor: Peter Brodersen
Date: 18-12-2019

Emil Jørsboe
Probabilistic methods for the analysis of genome-wide data for admixed populations including association studies in Greenlandic Inuit
Supervisor: Anders Albrechtsen
Date: 15-09-2019

Ryan Kele Waples
Relatedness, admixture and the genetic history of Greenland-European contact
Supervisor: Ida Moltke & Anders Albrechtsen
Date: 15-04-2019

Vipin Kumar
Exploring the central dogma from both ends. Omics integration of Hi-C sequencing and Raman spectroscopic data
Supervisor: Albin Sandelin
Date: 15-10-2018

Casper Kaae Sønderby
Inference and Learning in Deep Generative Models
Supervisor: Ole Winther & Anders Krogh
Date: 03-09-2018

Maria Dalby
Regulation and maintenance of transcriptional specificity
Supervisor: Robin Andersson
Date: 15-06-2018

Malte Thodberg
Organism- and disease-specific atlases of transcription start sites using Cap Analysis of Gene Expression (CAGE)
Supervisor: Albin Sandelin
Date: 14-03-2018

Søren Kaae Sønderby
Sequence Analysis
Supervisor: Anders Krogh & Ole Winther
Date: 21-12-2017

Siyang Liu
Analysing human genomes at different scales
Supervisor: Anders Krogh & Anders Albrechtsen
Date: 27-09-2017

Casper-Emil Tingskov Pedersen
Demographic inferences from large-scale NGS data
Supervisor: Anders Albrechtsen
Date: 31-08-2017

Andrea Barghetti
Investigating membrane-bound Argonaute functions in Arabidopsis
Supervisor: Peter Brodersen
Date: 15-05-2017

Kristoffer Vitting-Seerup
Transcriptional diversity and regulation across time and states
Supervisor: Albin Sandelin
Date: 30-09-2016

Simon Horskjær Rasmussen
Computational Investigations of Post-transcriptional Regulation
Supervisor: Anders Krogh
Date: 05-09-2016

Peter Frandsen
Adaptive Evolution and Demographic History of African Great Apes
Supervisor: Hans R. Siegismund & Anders Albrechtsen
Date: 13-08-2016

Lasse Maretty
Probabilistic methods for processing high-throughput sequencing signals
Supervisor: Anders Krogh
Date: 07-07-2016

Jonas Andreas Sibbesen
Probabilistic transcriptome assembly and variant graph genotyping
Supervisor: Anders Krogh
Date: 08-06-2016

Lee Poul O’Brien Andersen
Blastocystis in a Gut Microbiota Context and Aspects of Blastocystis Genomics
Supervisor: Anders Krogh
Date: 29-01-2016

Miranda van Wonterhgem
Non-coding RNAs in Arabidopsis
Supervisor: Peter Brodersen
Date: 02-11-2015

Swathi Pranavi Kausika
Regulated proteolysis of Arabidopsis ARGONAUTE1
Supervisor: Peter Brodersen
Date: 15-08-2015

Laura Arribas-Hernandez
Post-transcriptional gene regulation mediated by small RNAs and ARGONAUTE1 in Arabidopsis
Supervisor: Peter Brodersen
Date: 17-07-2015

Rehannah Borup Helweg-Larsen
Application of Microarray technology in research and diagnostics: Differential expression catalogs and molecular signatures
Supervisor: Ole Winther
Date: 23-06-2015

Xiaodong Fang
Convergent and divergent adaptations of subterranean rodents
Supervisor: Anders Krogh
Date: 30-03-2015

Hongzhi Cao
MHC region and its related disease study
Supervisor: Anders Krogh & Jun Wang
Date: 23-03-2015

Line Skotte
Statistical approaches accommodating uncertainty in modern genomic data
Supervisor: Anders Albrechtsen
Date: 15-02-2015

Frederik Otzen Bagger
Aberrant Gene Expression in Acute Myeloid Leukaemia
Supervisor: Anders Krogh
Date: 01-10-2014

Mette Jørgensen
Computational approached to understand transcriptional regulation and alternative promoter in mammals
Supervisor: Albin Sandelin
Date: 22-04-2014

Signe Olivarius
Methods for RNA Analysis: Functional Investigation of RNA by Interaction Proteomics and High-throughput Transcription Start Site Assessment
Supervisor: Jan Christiansen & Jeppe Vinther
Date: 17-02-2014

Lukasz Kielpinski
High-throughput sequencing based methods of RNA structure investigation
Supervisor: Jeppe Vinther & Jan Christiansen
Date: 14-02-2014

Lars Rønn Olsen
The prognostic, diagnostic, and therapeutic potential of tumor antigens
Supervisor: Anders Krogh
Date: 21-11-2013

Christian Andreetta
Probabilistic Equilibrium Sampling of Protein Structures from SAXS Data and a Coarse Grained Debye Formula
Supervisor: Thomas Hamelryck
Date: 15-11-2013

Simon Olsson
Inference problems in structural biology: protein structures and protein structure ensembles
Supervisor: Thomas Hamelryck
Date: 26-03-2013

Bogumil Kaczkowski
Computational Cancer Biology: From Carcinogenesis to Metastasis
Supervisor: Anders Krogh & Ole Winther
Date: 15-04-2012

Kasper Stovgaard
Inferential Determination of Protein Structure from Small-Angle X-ray Scattering Data
Supervisor: Thomas Hamelryck & Anders Krogh
Date: 01-03-2012

Xiaobei Zhao
On gene regulation in eukaryotes: Computational approaches to decipher transcriptional regulation at genetic and epigenetic level
Supervisor: Albin Sandelin
Date: 01-02-2012

Rasmus Heller
Demographic History and Phylogeography of Large African Mammals
Supervisor: Hans R. Siegismund
Date: 15-12-2011

Christina Hvilsom
Chimpanzee history and evolution
Supervisor: Hans R. Siegismund
Date: 15-12-2011

Jes Frellsen
Probabilistic methods in macromolecular structure prediction
Supervisor: Thomas Hamelryck
Date: 07-03-2011

Stinus Lindgreen
Bioinformatical approached to RNA structure prediction & Sequencing of an ancient human genome
Supervisor: Anders Krogh & Paul P. Gardner
Date: 29-01-2010

Eivind Valen
Deciphering Transcriptional Regulation
Supervisor: Albin Sandelin & Anders Krogh
Date: 15-12-2009